Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 117 of 120
Found at i:18100170 original size:3 final size:3
Alignment explanation
Indices: 18100162--18100194 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
18100152 CAAAATTAGC
18100162 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18100195 TTGTATTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:18100711 original size:19 final size:20
Alignment explanation
Indices: 18100687--18100728 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
18100677 AAGATATCAA
*
18100687 TTATTATTAATTT-CATTTT
1 TTATTATTAATTTACATTGT
*
18100706 TTATTATTATTTTACATTGT
1 TTATTATTAATTTACATTGT
18100726 TTA
1 TTA
18100729 AATTAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (20 bp):
TTATTATTAATTTACATTGT
Found at i:18100864 original size:14 final size:13
Alignment explanation
Indices: 18100845--18100883 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
18100835 AGCTTTATCT
18100845 AAAAATTACATTTA
1 AAAAATT-CATTTA
18100859 AAAAATTCATTTA
1 AAAAATTCATTTA
* *
18100872 AACAATTTATTT
1 AAAAATTCATTT
18100884 TTTTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAAATTCATTTA
Found at i:18101112 original size:3 final size:3
Alignment explanation
Indices: 18101106--18101167 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
18101096 AATTATTACC
18101106 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
18101154 AGT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
18101168 CAACATAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18101184 original size:12 final size:13
Alignment explanation
Indices: 18101168--18101219 Score: 65
Period size: 12 Copynumber: 4.2 Consensus size: 13
18101158 ATAATAATAA
18101168 CAACATAAAAAAT
1 CAACATAAAAAAT
*
18101181 -AACAT-AAAAGT
1 CAACATAAAAAAT
18101192 CAACATAAAAAAT
1 CAACATAAAAAAT
*
18101205 CAAAAT-AAAAAT
1 CAACATAAAAAAT
18101217 CAA
1 CAA
18101220 AACAAAAAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 5 0.15
12 19 0.56
13 10 0.29
ACGTcount: A:0.69, C:0.13, G:0.02, T:0.15
Consensus pattern (13 bp):
CAACATAAAAAAT
Found at i:18101199 original size:24 final size:25
Alignment explanation
Indices: 18101160--18101219 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 25
18101150 TAATAGTAAT
*
18101160 AATAATAA-CAACATAAAAAAT-AA
1 AATAAAAATCAACATAAAAAATCAA
* *
18101183 CATAAAAGTCAACATAAAAAATCAA
1 AATAAAAATCAACATAAAAAATCAA
18101208 AATAAAAATCAA
1 AATAAAAATCAA
18101220 AACAAAAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 5 0.17
24 13 0.43
25 12 0.40
ACGTcount: A:0.70, C:0.12, G:0.02, T:0.17
Consensus pattern (25 bp):
AATAAAAATCAACATAAAAAATCAA
Found at i:18101212 original size:25 final size:24
Alignment explanation
Indices: 18101160--18101233 Score: 78
Period size: 25 Copynumber: 3.1 Consensus size: 24
18101150 TAATAGTAAT
*
18101160 AATAATAA-CAACATAAAAAATAA
1 AATAAAAATCAACATAAAAAATAA
* *
18101183 CATAAAAGTCAACATAAAAAATCAA
1 AATAAAAATCAACATAAAAAAT-AA
* * *
18101208 AATAAAAATCAAAACAAAAAGTAA
1 AATAAAAATCAACATAAAAAATAA
18101232 AA
1 AA
18101234 AGAAAAAGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 5 0.12
24 17 0.41
25 19 0.46
ACGTcount: A:0.72, C:0.11, G:0.03, T:0.15
Consensus pattern (24 bp):
AATAAAAATCAACATAAAAAATAA
Found at i:18101215 original size:6 final size:6
Alignment explanation
Indices: 18101109--18101245 Score: 51
Period size: 6 Copynumber: 22.2 Consensus size: 6
18101099 TATTACCAAT
* * * * * * * **
18101109 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAGT
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
* * * * * *
18101157 AATAAT AATAACA ACATAAA AA-ATAA CATAAA AGTCAA CATAAAA AATCAA
1 AATAAA AATAA-A A-ATAAA AATA-AA AATAAA AATAAA AAT-AAA AATAAA
* * * *
18101208 AATAAA AATCAA AACAAA AAGTAAA AAGAAA AAGAAA A
1 AATAAA AATAAA AATAAA AA-TAAA AATAAA AATAAA A
18101246 GAAAAAACCT
Statistics
Matches: 107, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
5 1 0.01
6 89 0.83
7 13 0.12
8 4 0.04
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:18101934 original size:10 final size:9
Alignment explanation
Indices: 18101918--18101945 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
18101908 GAAATCAAAG
18101918 ATTTTTTTT
1 ATTTTTTTT
18101927 ATTTTTTTT
1 ATTTTTTTT
18101936 ATTTTTTTT
1 ATTTTTTTT
18101945 A
1 A
18101946 AAAGATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:18101965 original size:3 final size:3
Alignment explanation
Indices: 18101959--18102014 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
18101949 GATTAATAAT
18101959 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
18102007 AAC AAC AA
1 AAC AAC AA
18102015 TAATAATAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:18102019 original size:3 final size:3
Alignment explanation
Indices: 18102013--18102060 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
18102003 CAACAACAAC
18102013 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
18102059 AA
1 AA
18102061 AAAGAAACAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18102296 original size:39 final size:39
Alignment explanation
Indices: 18102246--18102488 Score: 179
Period size: 39 Copynumber: 6.3 Consensus size: 39
18102236 GAAGCTATAA
*
18102246 AACTTTAAATTCAAAAGGCTCCTTTCACCAGAGGCAGTG
1 AACTTTAAATTCAAAAGGCTCCTTTCACCAGAGGCAATG
* * *
18102285 AACTTTAAATTCAAAA-CCTCCTTTAACCAAAGGCAATG
1 AACTTTAAATTCAAAAGGCTCCTTTCACCAGAGGCAATG
* * **
18102323 AACTTTAAATTTAAAAGGCTCCTCTCACCAGAGGCAACA
1 AACTTTAAATTCAAAAGGCTCCTTTCACCAGAGGCAATG
* * ** * * * *
18102362 AATTTTAAA-TCTAAAAAGCTATTTTAACCAAAGGTAA-C
1 AACTTTAAATTC-AAAAGGCTCCTTTCACCAGAGGCAATG
* * **
18102400 ATACTTTAAATTCCAAAA-GCTCCTTTAACCAAAGGCAACA
1 A-ACTTTAAATT-CAAAAGGCTCCTTTCACCAGAGGCAATG
* * * * * * * *
18102440 AATTTTAAATTAAAAAGGCTCATCTGATCAGAGGTAACG
1 AACTTTAAATTCAAAAGGCTCCTTTCACCAGAGGCAATG
18102479 AACTTTAAAT
1 AACTTTAAAT
18102489 GGCTCATTTA
Statistics
Matches: 161, Mismatches: 36, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
38 39 0.24
39 115 0.71
40 6 0.04
41 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (39 bp):
AACTTTAAATTCAAAAGGCTCCTTTCACCAGAGGCAATG
Found at i:18102422 original size:78 final size:77
Alignment explanation
Indices: 18102246--18102456 Score: 255
Period size: 78 Copynumber: 2.7 Consensus size: 77
18102236 GAAGCTATAA
*** * * * *
18102246 AACTTTAAATTCAAAAGGCTCCTTTCACCAGAGGCAGTGAACTTTAAATTCAAAACCTCCTTTAA
1 AACTTTAAATTCAAAAGGCTCCTTTCACCAGAGGCAACAAATTTTAAATTAAAAAGCTACTTTAA
*
18102311 CCAAAGGCAATG
66 CCAAAGGCAATC
* * *
18102323 AACTTTAAATTTAAAAGGCTCCTCTCACCAGAGGCAACAAATTTTAAATCTAAAAAGCTATTTTA
1 AACTTTAAATTCAAAAGGCTCCTTTCACCAGAGGCAACAAATTTTAAAT-TAAAAAGCTACTTTA
*
18102388 ACCAAAGGTAA-C
65 ACCAAAGGCAATC
* *
18102400 ATACTTTAAATTCCAAAA-GCTCCTTTAACCAAAGGCAACAAATTTTAAATTAAAAAG
1 A-ACTTTAAATT-CAAAAGGCTCCTTTCACCAGAGGCAACAAATTTTAAATTAAAAAG
18102457 GCTCATCTGA
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
77 51 0.44
78 60 0.52
79 4 0.03
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.27
Consensus pattern (77 bp):
AACTTTAAATTCAAAAGGCTCCTTTCACCAGAGGCAACAAATTTTAAATTAAAAAGCTACTTTAA
CCAAAGGCAATC
Found at i:18102475 original size:78 final size:75
Alignment explanation
Indices: 18102246--18102527 Score: 227
Period size: 78 Copynumber: 3.7 Consensus size: 75
18102236 GAAGCTATAA
* * *** * * * *
18102246 AACTTTAAATTCAAAAGGCTCCTTTCACCAGAGGCAGTGAACTTTAAATTCAAAACCTCCTT-TA
1 AACTTTAAATT-AAAA-GCTCCTTTAACCAAAGGCAACAAATTTTAAATTAAAAAGCT-ATTCTA
* *
18102310 ACCAAAGGCAATG
63 ACCAAAGGTAACG
* * * *
18102323 AACTTTAAATTTAAAAGGCTCCTCTCACCAGAGGCAACAAATTTTAAATCTAAAAAGCTATTTTA
1 AACTTTAAA-TTAAAA-GCTCCTTTAACCAAAGGCAACAAATTTTAAAT-TAAAAAGCTATTCTA
18102388 ACCAAAGGTAAC-
63 ACCAAAGGTAACG
18102400 ATACTTTAAATTCCAAAAGCTCCTTTAACCAAAGGCAACAAATTTTAAATTAAAAAGGCTCA-TC
1 A-ACTTTAAATT--AAAAGCTCCTTTAACCAAAGGCAACAAATTTTAAATTAAAAA-GCT-ATTC
* * *
18102464 TGATCAGAGGTAACG
61 TAACCAAAGGTAACG
* * *
18102479 AACTTTAAA-T---GGCTCATTTAACCAAAGGTAACAAATTTTAAATTAAAAA
1 AACTTTAAATTAAAAGCTCCTTTAACCAAAGGCAACAAATTTTAAATTAAAAA
18102528 TATGAGAGAA
Statistics
Matches: 176, Mismatches: 20, Indels: 23
0.80 0.09 0.11
Matches are distributed among these distances:
72 36 0.20
77 53 0.30
78 81 0.46
79 6 0.03
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.27
Consensus pattern (75 bp):
AACTTTAAATTAAAAGCTCCTTTAACCAAAGGCAACAAATTTTAAATTAAAAAGCTATTCTAACC
AAAGGTAACG
Found at i:18110119 original size:20 final size:20
Alignment explanation
Indices: 18110050--18110108 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
18110040 TTTCGATCAC
* *
18110050 CAAAAAATTCAAATAGTCAT
1 CAAAAAATTCAAATGGTCGT
18110070 CAAAAAATTCAAATGGTCGT
1 CAAAAAATTCAAATGGTCGT
18110090 CAAAAAATTCAAATGGTCG
1 CAAAAAATTCAAATGGTCG
18110109 CTGAAAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (20 bp):
CAAAAAATTCAAATGGTCGT
Found at i:18115068 original size:26 final size:26
Alignment explanation
Indices: 18115032--18115083 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
18115022 TTGTTGCCTC
18115032 CAAGCATAAAATAACAACTCACATCA
1 CAAGCATAAAATAACAACTCACATCA
*
18115058 CAAGCATAAAATAATAACTCACATCA
1 CAAGCATAAAATAACAACTCACATCA
18115084 GTCCACACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.54, C:0.25, G:0.04, T:0.17
Consensus pattern (26 bp):
CAAGCATAAAATAACAACTCACATCA
Found at i:18118009 original size:13 final size:13
Alignment explanation
Indices: 18117991--18118018 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18117981 ATATATATAA
18117991 TTTTTTATAAATT
1 TTTTTTATAAATT
18118004 TTTTTTATAAATT
1 TTTTTTATAAATT
18118017 TT
1 TT
18118019 GAAGTGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTTATAAATT
Found at i:18122584 original size:28 final size:28
Alignment explanation
Indices: 18122534--18122591 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
18122524 TCTAACTCTC
* *
18122534 TTAATTTTTTCTTTTTGGCGGATAAACT
1 TTAATTTTTTCTTGTAGGCGGATAAACT
**
18122562 TTAATTTTTTCTTGTAGTTGGATAAACT
1 TTAATTTTTTCTTGTAGGCGGATAAACT
18122590 TT
1 TT
18122592 CTCCTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.09, G:0.14, T:0.55
Consensus pattern (28 bp):
TTAATTTTTTCTTGTAGGCGGATAAACT
Found at i:18123134 original size:2 final size:2
Alignment explanation
Indices: 18123127--18123153 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18123117 CAACATTCAT
18123127 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
18123154 TACACTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18125680 original size:2 final size:2
Alignment explanation
Indices: 18125673--18125700 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18125663 GTTTTCCTGC
18125673 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18125701 AATAAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18132274 original size:5 final size:5
Alignment explanation
Indices: 18132255--18132324 Score: 76
Period size: 5 Copynumber: 14.0 Consensus size: 5
18132245 CAAGAAACCA
18132255 AAAAT -AAAT -AAAT AAAAT AAAAT AAAAT AAAACCT AAAAT AAAAT -AAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA--T AAAAT AAAAT AAAAT
18132304 -AAAT AAAATT AAAACT AAAAT
1 AAAAT AAAA-T AAAA-T AAAAT
18132325 TGGGCCATCC
Statistics
Matches: 59, Mismatches: 1, Indels: 10
0.84 0.01 0.14
Matches are distributed among these distances:
4 16 0.27
5 28 0.47
6 10 0.17
7 5 0.08
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:18132288 original size:35 final size:37
Alignment explanation
Indices: 18132249--18132323 Score: 111
Period size: 35 Copynumber: 2.1 Consensus size: 37
18132239 TCAAACCAAG
18132249 AAACCAAAAAT-AAATAAATAAAATAAAA-TAAAA-TA
1 AAACCAAAAATAAAATAAAT-AAATAAAATTAAAACTA
*
18132284 AAACCTAAAATAAAATAAATAAATAAAATTAAAACTA
1 AAACCAAAAATAAAATAAATAAATAAAATTAAAACTA
18132321 AAA
1 AAA
18132324 TTGGGCCATC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
35 18 0.50
36 13 0.36
37 5 0.14
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.19
Consensus pattern (37 bp):
AAACCAAAAATAAAATAAATAAATAAAATTAAAACTA
Found at i:18132304 original size:31 final size:30
Alignment explanation
Indices: 18132260--18132324 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 30
18132250 AACCAAAAAT
18132260 AAATAAATAAAATAAAATAAAA-TAAAACCTA
1 AAATAAATAAAAT-AAATAAAATTAAAA-CTA
18132291 AAATAAA-ATAAATAAATAAAATTAAAACTA
1 AAATAAATA-AAATAAATAAAATTAAAACTA
18132321 AAAT
1 AAAT
18132325 TGGGCCATCC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 16 0.50
31 16 0.50
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.22
Consensus pattern (30 bp):
AAATAAATAAAATAAATAAAATTAAAACTA
Found at i:18132641 original size:42 final size:40
Alignment explanation
Indices: 18132531--18132801 Score: 276
Period size: 42 Copynumber: 6.5 Consensus size: 40
18132521 AAAAAACACG
** * *
18132531 ACTTTGAAAAAATAAATTACTCCTCTGAATAA-AGGTAGCATA
1 ACTTTG-AAAAATAAATGGCTCCTCTGAA-AAGAGGCAACA-A
*
18132573 ACTTTGAAAAATAAATGGCTCATCTGAAAAGAGGCAACGAA
1 ACTTTGAAAAATAAATGGCTCCTCTGAAAAGAGGCAAC-AA
*
18132614 ACTTTGAAAAAATAAATGGCTCCTCTGAATAA-AGGCAATAAA
1 ACTTTG-AAAAATAAATGGCTCCTCTGAA-AAGAGGCAA-CAA
* *
18132656 ACTTTGGAAAATAAATGGCTCCTCTGAATAGAGGCAACAA
1 ACTTTGAAAAATAAATGGCTCCTCTGAAAAGAGGCAACAA
* * * *
18132696 TATTTTGGAAAAATAAATGGCTCCTCTGAATAGAGGTAATAAA
1 -ACTTT-GAAAAATAAATGGCTCCTCTGAAAAGAGGCAA-CAA
* * *
18132739 ACTTTGGAAAAATAAATGACTCCTTTGAATAGAGGCAACAGA
1 ACTTT-GAAAAATAAATGGCTCCTCTGAAAAGAGGCAACA-A
*
18132781 ACTTTGGAAAATAAATGGCTC
1 ACTTTGAAAAATAAATGGCTC
18132802 ATCGACAATC
Statistics
Matches: 198, Mismatches: 21, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
40 5 0.03
41 77 0.39
42 112 0.57
43 4 0.02
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (40 bp):
ACTTTGAAAAATAAATGGCTCCTCTGAAAAGAGGCAACAA
Found at i:18132670 original size:83 final size:82
Alignment explanation
Indices: 18132531--18132801 Score: 364
Period size: 83 Copynumber: 3.3 Consensus size: 82
18132521 AAAAAACACG
** ** * * *
18132531 ACTTTGAAAAAATAAATTACTCCTCTGAATAAAGGTAGCATAACTTTGAAAAATAAATGGCTCAT
1 ACTTTGAAAAAATAAATGGCTCCTCTGAATAAAGGTAATAAAACTTTGGAAAATAAATGGCTCCT
*
18132596 CTGAAAAGAGGCAACGAA
66 CTGAATAGAGGCAAC-AA
*
18132614 ACTTTGAAAAAATAAATGGCTCCTCTGAATAAAGGCAATAAAACTTTGGAAAATAAATGGCTCCT
1 ACTTTGAAAAAATAAATGGCTCCTCTGAATAAAGGTAATAAAACTTTGGAAAATAAATGGCTCCT
18132679 CTGAATAGAGGCAACAA
66 CTGAATAGAGGCAACAA
* * * *
18132696 TATTTTGGAAAAATAAATGGCTCCTCTGAATAGAGGTAATAAAACTTTGGAAAAATAAATGACTC
1 -ACTTTGAAAAAATAAATGGCTCCTCTGAATAAAGGTAATAAAACTTTGG-AAAATAAATGGCTC
*
18132761 CTTTGAATAGAGGCAACAGA
64 CTCTGAATAGAGGCAACA-A
*
18132781 ACTTTG-GAAAATAAATGGCTC
1 ACTTTGAAAAAATAAATGGCTC
18132802 ATCGACAATC
Statistics
Matches: 168, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
82 2 0.01
83 130 0.77
84 35 0.21
85 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (82 bp):
ACTTTGAAAAAATAAATGGCTCCTCTGAATAAAGGTAATAAAACTTTGGAAAATAAATGGCTCCT
CTGAATAGAGGCAACAA
Found at i:18132753 original size:125 final size:124
Alignment explanation
Indices: 18132539--18132801 Score: 348
Period size: 125 Copynumber: 2.1 Consensus size: 124
18132529 CGACTTTGAA
** * *
18132539 AAAATAAATTACTCCTCTGAATAAAGGTAGCATAACTTTGAAAAATAAATGGCTCATCTGAAAAG
1 AAAATAAATGGCTCCTCTGAATAAAGGCAACATAACTTTGAAAAATAAATGGCTCATCTGAAAAG
* * *
18132604 AGGCAACGAAACTTTGAAAAAATAAATGGCTCCTCTGAATAAAGGCAATAAAACTTTGG
66 AGGCAACAAAACTTTGAAAAAATAAATGACTCCTCTGAATAAAGGCAACAAAACTTTGG
* * * *
18132663 AAAATAAATGGCTCCTCTGAATAGAGGCAACA-ATATTTTGGAAAAATAAATGGCTCCTCTGAAT
1 AAAATAAATGGCTCCTCTGAATAAAGGCAACATA-ACTTT-GAAAAATAAATGGCTCATCTGAAA
* * * * * *
18132727 AGAGGTAATAAAACTTTGGAAAAATAAATGACTCCTTTGAATAGAGGCAACAGAACTTTGG
64 AGAGGCAACAAAACTTTGAAAAAATAAATGACTCCTCTGAATAAAGGCAACAAAACTTTGG
18132788 AAAATAAATGGCTC
1 AAAATAAATGGCTC
18132802 ATCGACAATC
Statistics
Matches: 120, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
123 1 0.01
124 31 0.26
125 88 0.73
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (124 bp):
AAAATAAATGGCTCCTCTGAATAAAGGCAACATAACTTTGAAAAATAAATGGCTCATCTGAAAAG
AGGCAACAAAACTTTGAAAAAATAAATGACTCCTCTGAATAAAGGCAACAAAACTTTGG
Found at i:18133078 original size:21 final size:22
Alignment explanation
Indices: 18133054--18133106 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
18133044 AACTTAAAAC
*
18133054 TCAAATATTTTTC-TTTGAAAT
1 TCAAAGATTTTTCATTTGAAAT
* *
18133075 TCAAAGA-CTCTCATTTGAAAT
1 TCAAAGATTTTTCATTTGAAAT
18133096 TCAAAGATTTT
1 TCAAAGATTTT
18133107 CATCAAAAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 3 0.12
21 21 0.84
22 1 0.04
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (22 bp):
TCAAAGATTTTTCATTTGAAAT
Found at i:18133109 original size:21 final size:21
Alignment explanation
Indices: 18133062--18133109 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
18133052 ACTCAAATAT
18133062 TTTTC-TTTGAAATTCAAAGA
1 TTTTCATTTGAAATTCAAAGA
* *
18133082 CTCTCATTTGAAATTCAAAGA
1 TTTTCATTTGAAATTCAAAGA
18133103 TTTTCAT
1 TTTTCAT
18133110 CAAAAACCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (21 bp):
TTTTCATTTGAAATTCAAAGA
Found at i:18142798 original size:3 final size:3
Alignment explanation
Indices: 18142786--18142835 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
18142776 AATAATTTAA
*
18142786 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18142834 AA
1 AA
18142836 CATAAAAAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:18142850 original size:21 final size:22
Alignment explanation
Indices: 18142826--18142875 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
18142816 AATAATAATA
18142826 ATAATAAT-AACATAAAAAAGC
1 ATAATAATCAACATAAAAAAGC
* *
18142847 ATAAAAATCAACATAAAAAATC
1 ATAATAATCAACATAAAAAAGC
*
18142869 AAAATAA
1 ATAATAA
18142876 AAATCAAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.70, C:0.10, G:0.02, T:0.18
Consensus pattern (22 bp):
ATAATAATCAACATAAAAAAGC
Found at i:18142867 original size:13 final size:13
Alignment explanation
Indices: 18142849--18142900 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
18142839 AAAAAAGCAT
*
18142849 AAAAATCAACATA
1 AAAAATCAAAATA
18142862 AAAAATCAAAAT-
1 AAAAATCAAAATA
*
18142874 AAAAATCAAAACA
1 AAAAATCAAAATA
18142887 AAAAAT-AAAA-A
1 AAAAATCAAAATA
18142898 AAA
1 AAA
18142901 GAAAAGGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
11 4 0.11
12 15 0.42
13 17 0.47
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATCAAAATA
Found at i:18142878 original size:6 final size:6
Alignment explanation
Indices: 18142784--18142897 Score: 54
Period size: 6 Copynumber: 18.7 Consensus size: 6
18142774 GTAATAATTT
* * * * * * *
18142784 AAAATA ACAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
** * * *
18142832 ATAACAT- AAAA-A AGCATA AAAATC AACATAA AAAATC AAAATA AAAATCA
1 A-AA-ATA AAAATA AAAATA AAAATA AAAAT-A AAAATA AAAATA AAAAT-A
18142882 AAACA-A AAAATA AAAA
1 AAA-ATA AAAATA AAAA
18142898 AAAGAAAAGG
Statistics
Matches: 87, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
5 4 0.05
6 70 0.80
7 10 0.11
8 3 0.03
ACGTcount: A:0.72, C:0.07, G:0.01, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:18142881 original size:25 final size:24
Alignment explanation
Indices: 18142847--18142900 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
18142837 ATAAAAAAGC
* *
18142847 ATAAAAATCAACATAAAAAATCAAA
1 ATAAAAATCAAAACAAAAAAT-AAA
18142872 ATAAAAATCAAAACAAAAAATAAA
1 ATAAAAATCAAAACAAAAAATAAA
18142896 A-AAAA
1 ATAAAA
18142901 GAAAAGGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 4 0.15
24 4 0.15
25 19 0.70
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.13
Consensus pattern (24 bp):
ATAAAAATCAAAACAAAAAATAAA
Found at i:18142896 original size:12 final size:12
Alignment explanation
Indices: 18142849--18142900 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
18142839 AAAAAAGCAT
*
18142849 AAAAATCAACATA
1 AAAAATCAA-AAA
*
18142862 AAAAATCAAAAT
1 AAAAATCAAAAA
18142874 AAAAATCAAAACA
1 AAAAATCAAAA-A
18142887 AAAAAT-AAAAA
1 AAAAATCAAAAA
18142898 AAA
1 AAA
18142901 GAAAAGGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 4 0.11
12 16 0.46
13 15 0.43
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAAATCAAAAA
Found at i:18143167 original size:20 final size:19
Alignment explanation
Indices: 18143142--18143194 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
18143132 CACTGGTGAT
*
18143142 TGAAAAATTCAAACGGTCAC
1 TGAAAAATTCAAACGATC-C
*
18143162 TGAAAAATTCAAACGATCG
1 TGAAAAATTCAAACGATCC
18143181 TCGAAAAATTCAAA
1 T-GAAAAATTCAAA
18143195 TGGTAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (19 bp):
TGAAAAATTCAAACGATCC
Found at i:18143938 original size:39 final size:39
Alignment explanation
Indices: 18143887--18144247 Score: 363
Period size: 39 Copynumber: 9.3 Consensus size: 39
18143877 AGAGGCTATA
* * *
18143887 AAACTTTAAATTCAAAAAGCTCCTATCACTAGAGGCAAC
1 AAACTTTAAATTCAAAAAGCTCCTTTCACCAAAGGCAAC
* * *
18143926 GAAA-TTTAAATTC-AAAAGCTCATTTAACCAAAAGCAAC
1 -AAACTTTAAATTCAAAAAGCTCCTTTCACCAAAGGCAAC
* * *
18143964 AAACTTTAAATTCAAAAGGCTCCTCTCACCAGAGGCAAC
1 AAACTTTAAATTCAAAAAGCTCCTTTCACCAAAGGCAAC
* * * *
18144003 AAACTTTAAATCCAAAAAGCTCATTTAACCAAAAGCAAC
1 AAACTTTAAATTCAAAAAGCTCCTTTCACCAAAGGCAAC
* * *
18144042 AAACTTTAAATTCAAAAGGCTCTTTTCACCAGAGGCAAC
1 AAACTTTAAATTCAAAAAGCTCCTTTCACCAAAGGCAAC
* * *
18144081 AAACTTTAAATGT-TAAAAGGTCCTATCACCAAAGGCAAC
1 AAACTTTAAAT-TCAAAAAGCTCCTTTCACCAAAGGCAAC
* * *
18144120 AAACTTTAAATTCAAAAAGCTCATTT-AACAGAAGGTAAC
1 AAACTTTAAATTCAAAAAGCTCCTTTCACCA-AAGGCAAC
* * * * *
18144159 ATACTTTAAATTCCAAAAGCTCTTTTAACCAAAGGTAAC
1 AAACTTTAAATTCAAAAAGCTCCTTTCACCAAAGGCAAC
* * * *
18144198 AAACTTTAAATT-AAAAAGGCTCATCTGACCAAAGGTAAC
1 AAACTTTAAATTCAAAAA-GCTCCTTTCACCAAAGGCAAC
*
18144237 GAACTTTAAAT
1 AAACTTTAAAT
18144248 GGCTCTTTTA
Statistics
Matches: 267, Mismatches: 47, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
37 3 0.01
38 36 0.13
39 221 0.83
40 7 0.03
ACGTcount: A:0.45, C:0.21, G:0.10, T:0.24
Consensus pattern (39 bp):
AAACTTTAAATTCAAAAAGCTCCTTTCACCAAAGGCAAC
Found at i:18144057 original size:78 final size:77
Alignment explanation
Indices: 18143887--18144247 Score: 411
Period size: 78 Copynumber: 4.6 Consensus size: 77
18143877 AGAGGCTATA
* * * * *
18143887 AAACTTTAAATTCAAAAAGCTCCTATCACTAGAGGCAACGAAA-TTTAAATTCAAAAGCTCATTT
1 AAACTTTAAATTCAAAAGGCTCATCTCACCAGAGGCAAC-AAACTTTAAATCCAAAAGCTCATTT
18143951 AACCAAAAGCAAC
65 AACCAAAAGCAAC
*
18143964 AAACTTTAAATTCAAAAGGCTCCTCTCACCAGAGGCAACAAACTTTAAATCCAAAAAGCTCATTT
1 AAACTTTAAATTCAAAAGGCTCATCTCACCAGAGGCAACAAACTTTAAATCC-AAAAGCTCATTT
18144029 AACCAAAAGCAAC
65 AACCAAAAGCAAC
* * ** * * *
18144042 AAACTTTAAATTCAAAAGGCTCTTTTCACCAGAGGCAACAAACTTTAAATGTTAAAAGGTCCTAT
1 AAACTTTAAATTCAAAAGGCTCATCTCACCAGAGGCAACAAACTTTAAAT-CCAAAAGCTCATTT
* *
18144107 CACCAAAGGCAAC
65 AACCAAAAGCAAC
* * * * * *
18144120 AAACTTTAAATTCAAAAAGCTCAT-TTAACAGAAGGTAACATACTTTAAATTCCAAAAGCTCTTT
1 AAACTTTAAATTCAAAAGGCTCATCTCACCAG-AGGCAACAAACTTTAAA-TCCAAAAGCTCATT
* *
18144184 TAACCAAAGGTAAC
64 TAACCAAAAGCAAC
* * * * *
18144198 AAACTTTAAATTAAAAAGGCTCATCTGACCAAAGGTAACGAACTTTAAAT
1 AAACTTTAAATTCAAAAGGCTCATCTCACCAGAGGCAACAAACTTTAAAT
18144248 GGCTCTTTTA
Statistics
Matches: 245, Mismatches: 33, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
76 3 0.01
77 50 0.20
78 187 0.76
79 5 0.02
ACGTcount: A:0.45, C:0.21, G:0.10, T:0.24
Consensus pattern (77 bp):
AAACTTTAAATTCAAAAGGCTCATCTCACCAGAGGCAACAAACTTTAAATCCAAAAGCTCATTTA
ACCAAAAGCAAC
Found at i:18144129 original size:117 final size:116
Alignment explanation
Indices: 18143887--18144286 Score: 458
Period size: 117 Copynumber: 3.5 Consensus size: 116
18143877 AGAGGCTATA
* * * * * *
18143887 AAACTTTAAATTCAAAAAGCTCCTATCACTAGAGGCAACGAAA-TTTAAATTCAAAAGCTCATTT
1 AAACTTTAAATTCAAAAAGCTCATTTAACCAAAGGCAAC-AAACTTTAAATTCAAAAGCTCTTTT
* * *
18143951 AACCAAAAGCAACAAACTTTAAATTCAAAAGGCTCCTCTCACCAGAGGCAAC
65 AACCAAAGGCAACAAACTTTAAATTAAAAAGGCTCCTCTCACCAAAGGCAAC
* *
18144003 AAACTTTAAATCCAAAAAGCTCATTTAACCAAAAGCAACAAACTTTAAATTCAAAAGGCTCTTTT
1 AAACTTTAAATTCAAAAAGCTCATTTAACCAAAGGCAACAAACTTTAAATTCAAAA-GCTCTTTT
* * * *
18144068 CACCAGAGGCAACAAACTTTAAATGTTAAAAGG-TCCTATCACCAAAGGCAAC
65 AACCAAAGGCAACAAACTTTAAAT-TAAAAAGGCTCCTCTCACCAAAGGCAAC
* *
18144120 AAACTTTAAATTCAAAAAGCTCATTTAA-CAGAAGGTAACATACTTTAAATTCCAAAAGCTCTTT
1 AAACTTTAAATTCAAAAAGCTCATTTAACCA-AAGGCAACAAACTTTAAATT-CAAAAGCTCTTT
* * * *
18144184 TAACCAAAGGTAACAAACTTTAAATTAAAAAGGCTCATCTGACCAAAGGTAAC
64 TAACCAAAGGCAACAAACTTTAAATTAAAAAGGCTCCTCTCACCAAAGGCAAC
* * * * *
18144237 GAACTTTAAA-T-----GGCTCTTTTAACCAAAGGTAACAAACTTTAAATTAAAAA
1 AAACTTTAAATTCAAAAAGCTCATTTAACCAAAGGCAACAAACTTTAAATTCAAAA
18144287 TCTGAGAGGA
Statistics
Matches: 246, Mismatches: 31, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
110 4 0.02
111 28 0.11
112 2 0.01
115 3 0.01
116 55 0.22
117 142 0.58
118 12 0.05
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.25
Consensus pattern (116 bp):
AAACTTTAAATTCAAAAAGCTCATTTAACCAAAGGCAACAAACTTTAAATTCAAAAGCTCTTTTA
ACCAAAGGCAACAAACTTTAAATTAAAAAGGCTCCTCTCACCAAAGGCAAC
Found at i:18144252 original size:33 final size:33
Alignment explanation
Indices: 18144184--18144280 Score: 104
Period size: 33 Copynumber: 2.8 Consensus size: 33
18144174 AAAGCTCTTT
18144184 TAACCAAAGGTAACAAACTTTAAATTAAAAAGGCTCATC
1 TAACCAAAGGTAACAAACTTTAAA-T-----GGCTCATC
* * * *
18144223 TGACCAAAGGTAACGAACTTTAAATGGCTCTTT
1 TAACCAAAGGTAACAAACTTTAAATGGCTCATC
18144256 TAACCAAAGGTAACAAACTTTAAAT
1 TAACCAAAGGTAACAAACTTTAAAT
18144281 TAAAAATCTG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
33 29 0.56
38 1 0.02
39 22 0.42
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (33 bp):
TAACCAAAGGTAACAAACTTTAAATGGCTCATC
Found at i:18159573 original size:14 final size:15
Alignment explanation
Indices: 18159536--18159578 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
18159526 TACTTCTTAT
18159536 ATGAGAATGATGCAA
1 ATGAGAATGATGCAA
*
18159551 ATGATAATG-TG-AA
1 ATGAGAATGATGCAA
18159564 CATGAGAATGATGCA
1 -ATGAGAATGATGCA
18159579 TAGAATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 2 0.09
14 10 0.43
15 10 0.43
16 1 0.04
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.23
Consensus pattern (15 bp):
ATGAGAATGATGCAA
Found at i:18160614 original size:16 final size:16
Alignment explanation
Indices: 18160590--18160620 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18160580 AAAAGTTTAT
*
18160590 TTATTATTTTTTATTA
1 TTATCATTTTTTATTA
18160606 TTATCATTTTTTATT
1 TTATCATTTTTTATT
18160621 GAAAATAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATCATTTTTTATTA
Found at i:18161108 original size:16 final size:16
Alignment explanation
Indices: 18161072--18161102 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18161062 TAATTCCCAC
18161072 AATTTTTATATTTTTT
1 AATTTTTATATTTTTT
18161088 AATTTTTA-ATTTTTT
1 AATTTTTATATTTTTT
18161103 TTATTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
AATTTTTATATTTTTT
Found at i:18162233 original size:17 final size:16
Alignment explanation
Indices: 18162202--18162254 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
18162192 CCAAGAAACA
* *
18162202 AAAAAAAAACGAAAATT
1 AAAAAAAATCTAAAA-T
18162219 AAAAAAAATCTAAAAT
1 AAAAAAAATCTAAAAT
*
18162235 AAATAAAAT-TAAAACT
1 AAAAAAAATCTAAAA-T
18162251 AAAA
1 AAAA
18162255 TTATGCCATC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
15 5 0.16
16 13 0.42
17 13 0.42
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (16 bp):
AAAAAAAATCTAAAAT
Found at i:18162237 original size:16 final size:17
Alignment explanation
Indices: 18162197--18162254 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
18162187 TCTAACCAAG
* * *
18162197 AAACAAAAAAAAAACGA
1 AAACTAAAAAAAATCTA
*
18162214 AAATTAAAAAAAATCTA
1 AAACTAAAAAAAATCTA
*
18162231 AAA-TAAATAAAAT-TA
1 AAACTAAAAAAAATCTA
18162246 AAACTAAAA
1 AAACTAAAA
18162255 TTATGCCATC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
15 5 0.15
16 13 0.38
17 16 0.47
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.16
Consensus pattern (17 bp):
AAACTAAAAAAAATCTA
Found at i:18162587 original size:27 final size:26
Alignment explanation
Indices: 18162535--18162587 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
18162525 CAACAACTTC
*
18162535 GTTAATTAAAATTTTAAAATATATAT
1 GTTAATTAAAATTTTAAAATAGATAT
* **
18162561 GTTAATTGAAAGTTTTAATTTAGATAT
1 GTTAATT-AAAATTTTAAAATAGATAT
18162588 ATTTTGTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.47
Consensus pattern (26 bp):
GTTAATTAAAATTTTAAAATAGATAT
Found at i:18165135 original size:30 final size:31
Alignment explanation
Indices: 18165101--18165167 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
18165091 CTAACAAGTA
18165101 GTATCAAAACTATCGTGAT-CCTAATAAATG
1 GTATCAAAACTATCGTGATCCCTAATAAATG
** * *
18165131 GTATCAAAGTTATGGTGATCCCTAATAATTG
1 GTATCAAAACTATCGTGATCCCTAATAAATG
18165162 GTATCA
1 GTATCA
18165168 GAGTTGAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 16 0.50
31 16 0.50
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (31 bp):
GTATCAAAACTATCGTGATCCCTAATAAATG
Found at i:18165158 original size:31 final size:30
Alignment explanation
Indices: 18165101--18165172 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 30
18165091 CTAACAAGTA
**
18165101 GTATCAAAACTATCGTGATCCTAATAAATG
1 GTATCAAAGTTATCGTGATCCTAATAAATG
* *
18165131 GTATCAAAGTTATGGTGATCCCTAATAATTG
1 GTATCAAAGTTATCGTGAT-CCTAATAAATG
*
18165162 GTATCAGAGTT
1 GTATCAAAGTT
18165173 GAAGATTTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 16 0.44
31 20 0.56
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (30 bp):
GTATCAAAGTTATCGTGATCCTAATAAATG
Found at i:18166014 original size:30 final size:30
Alignment explanation
Indices: 18165978--18166054 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
18165968 CCTTTTGGTT
18165978 TAACAAGTGGTATCAAAGCTATCGTAATCC
1 TAACAAGTGGTATCAAAGCTATCGTAATCC
*
18166008 TAACAAGTGGTATCAAAGTTATCGTAATCC
1 TAACAAGTGGTATCAAAGCTATCGTAATCC
** *
18166038 TAAGGAGTGATATCAAA
1 TAACAAGTGGTATCAAA
18166055 ATTATGATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (30 bp):
TAACAAGTGGTATCAAAGCTATCGTAATCC
Found at i:18170752 original size:125 final size:119
Alignment explanation
Indices: 18170545--18170782 Score: 325
Period size: 125 Copynumber: 1.9 Consensus size: 119
18170535 GTCCCCGTCC
*
18170545 TTCAATAAATGCCCCAATGTTTTCCCGCTTTATATATAAAAAATAAATATTGAAAATTGTTATTC
1 TTCAATAAATGCCCCAATGTTTTCCCGCTTTATATATAAAAAATAAAAATTGAAAATTGTTATTC
*
18170610 AAAAATGAAAACAATAAAAAAAA-AATCATGTTTTCCCTGGATTTGTTCCATCA
66 AAAAATGAAAACAATAAAAAAAACAACCATGTTTTCCCTGGATTTGTTCCATCA
* *
18170663 TTCAATAAATGCCCCAACCATGTTTTCCTGCTTTATATATAAAATAATAATAAAAATTGAAATTT
1 TTCAATAAATGCCCC-A--ATGTTTTCCCGCTTTATATAT--AA-AA-AATAAAAATTGAAAATT
* * ** *
18170728 TTTATTGAAATTTGAAAACAATAAAAAAAACAACCATGTTTTCCTTGGATTTGTT
59 GTTATTCAAAAATGAAAACAATAAAAAAAACAACCATGTTTTCCCTGGATTTGTT
18170783 AATATAAAGT
Statistics
Matches: 103, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
118 15 0.15
119 1 0.01
121 20 0.19
123 2 0.02
124 2 0.02
125 41 0.40
126 22 0.21
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (119 bp):
TTCAATAAATGCCCCAATGTTTTCCCGCTTTATATATAAAAAATAAAAATTGAAAATTGTTATTC
AAAAATGAAAACAATAAAAAAAACAACCATGTTTTCCCTGGATTTGTTCCATCA
Found at i:18173751 original size:19 final size:21
Alignment explanation
Indices: 18173713--18173753 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18173703 TATGATTATG
*
18173713 TTGTTAAATTCAACTGATAAT
1 TTGTTAAAATCAACTGATAAT
18173734 TTGTTAAAAT-AA-TGATAAT
1 TTGTTAAAATCAACTGATAAT
18173753 T
1 T
18173754 AAAGTGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 2 0.11
21 9 0.47
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (21 bp):
TTGTTAAAATCAACTGATAAT
Found at i:18180052 original size:20 final size:19
Alignment explanation
Indices: 18180027--18180080 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
18180017 GACTTTCTTG
18180027 TTATTTTATTATTTTATTTA
1 TTATTTT-TTATTTTATTTA
* *
18180047 TTATTTTTTTGTCTTTTTTTA
1 TTA-TTTTTTAT-TTTATTTA
18180068 TATATTTTTTATT
1 T-TATTTTTTATT
18180081 CTTGGTCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.25
21 19 0.68
22 2 0.07
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (19 bp):
TTATTTTTTATTTTATTTA
Found at i:18180083 original size:22 final size:22
Alignment explanation
Indices: 18180030--18180083 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
18180020 TTTCTTGTTA
*
18180030 TTTTATTATTTTATTTATTATT
1 TTTTATTCTTTTATTTATTATT
18180052 TTTT-TGTCTTTT-TTTATATATT
1 TTTTAT-TCTTTTATTTAT-TATT
18180074 TTTTATTCTT
1 TTTTATTCTT
18180084 GGTCATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 6 0.21
22 21 0.75
23 1 0.04
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTATTCTTTTATTTATTATT
Found at i:18181148 original size:18 final size:17
Alignment explanation
Indices: 18181118--18181158 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
18181108 TTTAAAAAAA
18181118 ATTTATTGATTTTTTTT
1 ATTTATTGATTTTTTTT
*
18181135 ATTTGATTGCTTTTTTTT
1 ATTT-ATTGATTTTTTTT
18181153 AATTTA
1 -ATTTA
18181159 AATTTTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 13 0.62
19 4 0.19
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (17 bp):
ATTTATTGATTTTTTTT
Found at i:18182049 original size:7 final size:8
Alignment explanation
Indices: 18182032--18182056 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18182022 CCACCAGTTC
18182032 TTTTTATT
1 TTTTTATT
18182040 TTTTTATT
1 TTTTTATT
18182048 TTTTTATT
1 TTTTTATT
18182056 T
1 T
18182057 AATAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTATT
Found at i:18182074 original size:18 final size:18
Alignment explanation
Indices: 18182051--18182098 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
18182041 TTTTATTTTT
18182051 TTATTTAATAAAT-TAATA
1 TTATTTAATAAATAT-ATA
* *
18182069 TTATTTTATTAATATATA
1 TTATTTAATAAATATATA
18182087 TTATTTAATAAA
1 TTATTTAATAAA
18182099 AATAAAACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTTAATAAATATATA
Found at i:18184870 original size:2 final size:2
Alignment explanation
Indices: 18184857--18184886 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18184847 CAAAAAGCTC
*
18184857 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18184887 GTTAGACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18186058 original size:32 final size:33
Alignment explanation
Indices: 18186021--18186088 Score: 120
Period size: 32 Copynumber: 2.1 Consensus size: 33
18186011 GGGAAAAGAA
*
18186021 ATAGGCCACAACACTAGCCAC-AACTATAATAC
1 ATAGGCCACAACACAAGCCACAAACTATAATAC
18186053 ATAGGCCACAACACAAGCCACAAACTATAATAC
1 ATAGGCCACAACACAAGCCACAAACTATAATAC
18186086 ATA
1 ATA
18186089 AACTTATTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 20 0.59
33 14 0.41
ACGTcount: A:0.47, C:0.29, G:0.09, T:0.15
Consensus pattern (33 bp):
ATAGGCCACAACACAAGCCACAAACTATAATAC
Found at i:18189893 original size:16 final size:16
Alignment explanation
Indices: 18189872--18189906 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
18189862 TAAATTTATT
18189872 AAAATA-AATAATTAAA
1 AAAATATAA-AATTAAA
18189888 AAAATATAAAATTAAA
1 AAAATATAAAATTAAA
18189904 AAA
1 AAA
18189907 GTTTTAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATATAAAATTAAA
Found at i:18190960 original size:11 final size:11
Alignment explanation
Indices: 18190934--18190966 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
18190924 AGAATAGTTT
18190934 TTATTAATT-A
1 TTATTAATTAA
18190944 -TATTAATTAA
1 TTATTAATTAA
18190954 TTATTAATTAA
1 TTATTAATTAA
18190965 TT
1 TT
18190967 TATTTAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.38
10 1 0.05
11 12 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTATTAATTAA
Found at i:18193580 original size:30 final size:30
Alignment explanation
Indices: 18193546--18193611 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
18193536 TTTTGTATTC
*
18193546 AAATAAACTCTTAAATTTTAATTTATATAT
1 AAATAAACCCTTAAATTTTAATTTATATAT
*** * *
18193576 AAATAAACCCTTGTCTTTTAATTTGTATCT
1 AAATAAACCCTTAAATTTTAATTTATATAT
18193606 AAATAA
1 AAATAA
18193612 TTGTTTAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (30 bp):
AAATAAACCCTTAAATTTTAATTTATATAT
Found at i:18194511 original size:5 final size:5
Alignment explanation
Indices: 18194501--18194530 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
18194491 CACATTAGAA
18194501 AAAAT AAAAT AAAAT AAAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAA
18194531 AGAAGAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:18194520 original size:11 final size:11
Alignment explanation
Indices: 18194501--18194531 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
18194491 CACATTAGAA
18194501 AAAAT-AAAAT
1 AAAATAAAAAT
18194511 AAAATAAAAAT
1 AAAATAAAAAT
18194522 AAAATAAAAA
1 AAAATAAAAA
18194532 GAAGAAGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:18194521 original size:16 final size:16
Alignment explanation
Indices: 18194500--18194530 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18194490 TCACATTAGA
18194500 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
18194516 AAAAATAAAATAAAA
1 AAAAATAAAATAAAA
18194531 AGAAGAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:18203796 original size:59 final size:58
Alignment explanation
Indices: 18203490--18204086 Score: 683
Period size: 59 Copynumber: 9.9 Consensus size: 58
18203480 TTTGTAGGGA
* *
18203490 AAAATTGATACTTTCAACTTTTCCC-AAAAATA--TTTTTTGGAAATTTCGATTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTT--ATTTTAAGG
*** *
18203547 AAAATTGATACTTTCAACTTTT-CCTCAAAAA-CCCTTTTTTTGAAAATTATTTATAAGG
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTTGAAATTTATTT-TAAGG
*
18203605 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TGTTTTTTGAAATTATGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATT-T-ATTTT-AAGG
*
18203665 AAAATTGATACTTTTCAACTTTTCCCCAAAAATACTTTTTTTTTGGAAATTTATTTTTCTTTTAA
1 AAAATTGATAC-TTTCAACTTTTCCCTAAAAATA-TTTTTTTTT-GAAATTTA------TTTTAA
18203730 GG
57 GG
*
18203732 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTCAAATTTATTCTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATT-TTAAGG
*
18203791 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTT-TAAGG
* *
18203850 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTACTTCTGAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTA-TTTTAAGG
* *
18203909 AAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTT-TAAGG
*
18203966 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTATTTTTGGAAATTATTTTTTCTTTTAA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTT-TTTTT-G-AA--A---TTTATTTTAA
18204031 GG
57 GG
* * * *
18204033 AAAAATTAATACTTTCAACTTTTCCCCAAAAATATATTTTTTAG-AATTT-TTTTA
1 -AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTTA
18204087 TTTTTATTTA
Statistics
Matches: 476, Mismatches: 28, Indels: 72
0.83 0.05 0.12
Matches are distributed among these distances:
56 4 0.01
57 81 0.17
58 53 0.11
59 163 0.34
60 23 0.05
61 26 0.05
62 2 0.00
63 11 0.02
64 13 0.03
65 11 0.02
66 25 0.05
67 23 0.05
68 41 0.09
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTTAAGG
Found at i:18204091 original size:68 final size:66
Alignment explanation
Indices: 18203906--18204085 Score: 188
Period size: 68 Copynumber: 2.9 Consensus size: 66
18203896 TTTACTTCTG
* * *
18203906 AGGAAAATTGATACTTTCAACTTTTCCCC-AAAA-A-TAT-TTTTTGGAAA-T-TTATTTC---T
1 AGGAAAATTAATACTTTCAACTTTTCCCCAAAAATATTATATTTTTAGAAATTATTTTTTCTTTT
18203962 A
66 A
* * * *
18203963 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTATTTTTGGAAATTATTTTTTCTTT
1 AGGAAAATTAATACTTTCAACTTTTCCCCAAAAATA-TTATATTTTTAGAAATTATTTTTTCTTT
18204028 TA
65 TA
18204030 AGGAAAAATTAATACTTTCAACTTTTCCCCAAAAATA-TAT-TTTTTAG-AATT-TTTTT
1 AGG-AAAATTAATACTTTCAACTTTTCCCCAAAAATATTATATTTTTAGAAATTATTTTT
18204086 ATTTTTATTT
Statistics
Matches: 105, Mismatches: 7, Indels: 16
0.82 0.05 0.12
Matches are distributed among these distances:
57 28 0.27
58 4 0.04
59 1 0.01
61 2 0.02
62 10 0.10
63 6 0.06
64 10 0.10
65 6 0.06
66 2 0.02
67 5 0.05
68 31 0.30
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.46
Consensus pattern (66 bp):
AGGAAAATTAATACTTTCAACTTTTCCCCAAAAATATTATATTTTTAGAAATTATTTTTTCTTTT
A
Found at i:18204176 original size:13 final size:13
Alignment explanation
Indices: 18204153--18204186 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
18204143 TTAATCTAAT
18204153 AAATAAAAATAAAC
1 AAAT-AAAATAAAC
18204167 AAATAAAATAAAC
1 AAATAAAATAAAC
18204180 AAATAAA
1 AAATAAA
18204187 CAAAGAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATAAAATAAAC
Found at i:18207494 original size:25 final size:24
Alignment explanation
Indices: 18207466--18207558 Score: 100
Period size: 25 Copynumber: 3.7 Consensus size: 24
18207456 AATAATAATA
*
18207466 TTTATTATAATTATAGTTAAAAAAT
1 TTTATTAAAATTATA-TTAAAAAAT
18207491 TTTATT-AAATTATTATT-AAAAAT
1 TTTATTAAAATTA-TATTAAAAAAT
*
18207514 TTTAATAAAAATTTATATTAAATAAAT
1 TTT-ATTAAAA-TTATATTAAA-AAAT
18207541 TTTATTAAAATTAATATT
1 TTTATTAAAATT-ATATT
18207559 TAAATTTAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
23 9 0.16
24 9 0.16
25 17 0.29
26 16 0.28
27 7 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
TTTATTAAAATTATATTAAAAAAT
Found at i:18207560 original size:16 final size:14
Alignment explanation
Indices: 18207482--18207549 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 14
18207472 ATAATTATAG
18207482 TTAAA-AAATTTTA
1 TTAAATAAATTTTA
*
18207495 TTAAAT---TATTA
1 TTAAATAAATTTTA
18207506 TT-AA-AAATTTTA
1 TTAAATAAATTTTA
*
18207518 AT-AA-AAATTTATA
1 TTAAATAAATTT-TA
18207531 TTAAATAAATTTTA
1 TTAAATAAATTTTA
18207545 TTAAA
1 TTAAA
18207550 ATTAATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
10 2 0.05
11 6 0.14
12 13 0.30
13 8 0.18
14 9 0.20
15 6 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTAAATAAATTTTA
Found at i:18207570 original size:23 final size:24
Alignment explanation
Indices: 18207487--18207580 Score: 75
Period size: 26 Copynumber: 3.8 Consensus size: 24
18207477 TATAGTTAAA
* * *
18207487 AAATTTTATT-AAATTATTATTAA
1 AAATTTAATTAAAATTAATATTAT
* *
18207510 AAATTTTAATAAAAATTTATATTAAAT
1 AAA-TTTAATTAAAATTAATATT--AT
*
18207537 AAATTTTATTAAAATTAATATT-T
1 AAATTTAATTAAAATTAATATTAT
18207560 AAATTTAATTAATAATATAAT
1 AAATTTAATTAA-AAT-TAAT
18207581 CAGCTTAATC
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
23 15 0.27
24 8 0.14
25 13 0.23
26 16 0.29
27 4 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AAATTTAATTAAAATTAATATTAT
Found at i:18209648 original size:12 final size:12
Alignment explanation
Indices: 18209631--18209659 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
18209621 CCCAATCCTC
18209631 TTATTGTTATTA
1 TTATTGTTATTA
18209643 TTATTGTTATTA
1 TTATTGTTATTA
18209655 TTATT
1 TTATT
18209660 ATCCCTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (12 bp):
TTATTGTTATTA
Found at i:18236118 original size:16 final size:16
Alignment explanation
Indices: 18236097--18236127 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18236087 AATTTTTATT
*
18236097 TTAAATTTTATTTTTC
1 TTAAATTTAATTTTTC
18236113 TTAAATTTAATTTTT
1 TTAAATTTAATTTTT
18236128 ATATTATCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTAAATTTAATTTTTC
Found at i:18250884 original size:8 final size:8
Alignment explanation
Indices: 18250871--18250897 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
18250861 GAAGATCACC
18250871 GTATTAAT
1 GTATTAAT
18250879 GTATTAAT
1 GTATTAAT
18250887 GTATTAAT
1 GTATTAAT
18250895 GTA
1 GTA
18250898 ATCACAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (8 bp):
GTATTAAT
Found at i:18250986 original size:14 final size:15
Alignment explanation
Indices: 18250967--18250995 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18250957 GTTTAGTTAA
18250967 TAATAATT-AATATT
1 TAATAATTAAATATT
18250981 TAATAATTAAATATT
1 TAATAATTAAATATT
18250996 ATTGTATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAATAATTAAATATT
Found at i:18251193 original size:15 final size:15
Alignment explanation
Indices: 18251145--18251198 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
18251135 TATTTATTTT
18251145 ATAATAAA-ATA-TA
1 ATAATAAATATATTA
18251158 AT--TAAAT-TATTAA
1 ATAATAAATATATT-A
18251171 ATTAATAAATATATTA
1 A-TAATAAATATATTA
18251187 ATAATAAATATA
1 ATAATAAATATA
18251199 GAATATAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
11 6 0.18
12 1 0.03
13 4 0.12
14 1 0.03
15 11 0.32
16 7 0.21
17 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAATAAATATATTA
Found at i:18251366 original size:15 final size:15
Alignment explanation
Indices: 18251343--18251381 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
18251333 GATTGTTAAT
18251343 TTTAAAATATAAAAA
1 TTTAAAATATAAAAA
*
18251358 TTTATAATATAAAATA
1 TTTAAAATATAAAA-A
*
18251374 ATTAAAAT
1 TTTAAAAT
18251382 TTTAAATGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTAAAATATAAAAA
Found at i:18251504 original size:21 final size:21
Alignment explanation
Indices: 18251463--18251505 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
18251453 TTTACTTTAA
**
18251463 TAATAAAAATTTTCATTTTTT
1 TAATAAAAATTTAAATTTTTT
18251484 TAATAAAAA-TTAAATTATTTT
1 TAATAAAAATTTAAATT-TTTT
18251505 T
1 T
18251506 TAAAATAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATAAAAATTTAAATTTTTT
Found at i:18258902 original size:15 final size:15
Alignment explanation
Indices: 18258882--18258913 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18258872 CAGTTTGACG
18258882 TTTTAGATCTTTTAT
1 TTTTAGATCTTTTAT
*
18258897 TTTTAGATTTTTTAT
1 TTTTAGATCTTTTAT
18258912 TT
1 TT
18258914 ACAATATCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (15 bp):
TTTTAGATCTTTTAT
Found at i:18263897 original size:3 final size:3
Alignment explanation
Indices: 18263889--18263924 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
18263879 AAGCCGATGT
18263889 TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18263925 CAGAGGAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18263911 original size:17 final size:17
Alignment explanation
Indices: 18263889--18263921 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18263879 AAGCCGATGT
18263889 TTATTATTATTATTATA
1 TTATTATTATTATTATA
18263906 TTATTATTATTATTAT
1 TTATTATTATTATTAT
18263922 TATCAGAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATTATTATTATA
Found at i:18264885 original size:3 final size:3
Alignment explanation
Indices: 18264877--18264931 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
18264867 AAGCCGATGT
18264877 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
18264925 TTG TTA T
1 TTA TTA T
18264932 CGGAGGAAGC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18276108 original size:21 final size:21
Alignment explanation
Indices: 18276084--18276127 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
18276074 TTCCGGTAGC
*
18276084 CATCCTCATTCCCCTCCTCCT
1 CATCCTCATTCCCCTCCGCCT
* *
18276105 CATCCTCCTTCTCCTCCGCCT
1 CATCCTCATTCCCCTCCGCCT
18276126 CA
1 CA
18276128 GGAGAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.57, G:0.02, T:0.32
Consensus pattern (21 bp):
CATCCTCATTCCCCTCCGCCT
Found at i:18277329 original size:32 final size:33
Alignment explanation
Indices: 18277262--18277329 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 33
18277252 ATCTCTCTCT
** * *
18277262 TTTTTTTTTCTTTTTGTTTTGTTTTGTTTTGTG
1 TTTTTTTTTCTTTTTGTTTCCTTTGGATTTGTG
18277295 TTTTTTTTT-TTTTTG-TTCCTTTGGATTTGCTG
1 TTTTTTTTTCTTTTTGTTTCCTTTGGATTTG-TG
18277327 TTT
1 TTT
18277330 CTGTTCTTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
31 10 0.33
32 11 0.37
33 9 0.30
ACGTcount: A:0.01, C:0.06, G:0.15, T:0.78
Consensus pattern (33 bp):
TTTTTTTTTCTTTTTGTTTCCTTTGGATTTGTG
Found at i:18280692 original size:42 final size:42
Alignment explanation
Indices: 18280645--18280729 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
18280635 TATACGGTGT
*
18280645 ATGTGTGTGTGATAATATGTGAATTCGAACGTATACAAATTA
1 ATGTGTGTGTGATAATATGTGAATTCGAACGCATACAAATTA
*
18280687 ATGTGTGTGTGATAATATGTGGATTCGAACGCATACAAATTA
1 ATGTGTGTGTGATAATATGTGAATTCGAACGCATACAAATTA
18280729 A
1 A
18280730 GTCAGTTGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.34
Consensus pattern (42 bp):
ATGTGTGTGTGATAATATGTGAATTCGAACGCATACAAATTA
Found at i:18281131 original size:3 final size:3
Alignment explanation
Indices: 18281123--18281178 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
18281113 AATTCTTTAC
18281123 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18281171 ATT ATT AT
1 ATT ATT AT
18281179 AGATATTGAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:18283781 original size:22 final size:21
Alignment explanation
Indices: 18283738--18283798 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 21
18283728 TCTTAAAACT
* *
18283738 CTATATATTTTTAATATCTAAAA
1 CTAT-TATTTTT-ATATTTTAAA
18283761 CTATTATTTTTATATTTTAAA
1 CTATTATTTTTATATTTTAAA
18283782 --ATTATTTTTATGATTTT
1 CTATTATTTTTAT-ATTTT
18283799 TTAAATATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 11 0.31
20 5 0.14
21 8 0.23
22 7 0.20
23 4 0.11
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (21 bp):
CTATTATTTTTATATTTTAAA
Found at i:18294316 original size:39 final size:39
Alignment explanation
Indices: 18294257--18294333 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
18294247 ACACTTCTCA
* *
18294257 AACTCCCTTTCATGTTCAAAACATCCAACCAGATCCTCC
1 AACTCCCTTTCAAGTCCAAAACATCCAACCAGATCCTCC
*
18294296 AACTCCCTTTTAAGTCCAAAACATCCAACCAGATCCTC
1 AACTCCCTTTCAAGTCCAAAACATCCAACCAGATCCTC
18294334 AAAGCTTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.32, C:0.38, G:0.05, T:0.25
Consensus pattern (39 bp):
AACTCCCTTTCAAGTCCAAAACATCCAACCAGATCCTCC
Found at i:18297111 original size:30 final size:30
Alignment explanation
Indices: 18297077--18297137 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
18297067 TGCATGCGCA
18297077 TCTAACATGTGAAACATTCATTTTCAAACT
1 TCTAACATGTGAAACATTCATTTTCAAACT
**
18297107 TCTAACATGTGAAATGTTCATTTTCAAACT
1 TCTAACATGTGAAACATTCATTTTCAAACT
18297137 T
1 T
18297138 GACTAAGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (30 bp):
TCTAACATGTGAAACATTCATTTTCAAACT
Found at i:18304337 original size:20 final size:21
Alignment explanation
Indices: 18304314--18304381 Score: 79
Period size: 20 Copynumber: 3.3 Consensus size: 21
18304304 AGCTTATTTA
18304314 TATTTATATTATATTA-TATT
1 TATTTATATTATATTATTATT
18304334 TATTTAT-TTATTATTATTATT
1 TATTTATATTA-TATTATTATT
* * *
18304355 TATTAATA-TATATTTTTACT
1 TATTTATATTATATTATTATT
18304375 TATTTAT
1 TATTTAT
18304382 CTATTAACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 3 0.07
20 26 0.63
21 12 0.29
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (21 bp):
TATTTATATTATATTATTATT
Found at i:18304345 original size:17 final size:17
Alignment explanation
Indices: 18304311--18304369 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
18304301 GTAAGCTTAT
18304311 TTATATTTA--TATTATA
1 TTATATTTATTTATT-TA
18304327 TTATATTTATTTATTTA
1 TTATATTTATTTATTTA
*
18304344 TTAT-TATTATTTATTAA
1 TTATAT-TTATTTATTTA
18304361 TATATATTT
1 T-TATATTT
18304370 TTACTTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
16 10 0.27
17 17 0.46
18 9 0.24
19 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATATTTATTTATTTA
Found at i:18304353 original size:13 final size:13
Alignment explanation
Indices: 18304337--18304378 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
18304327 TTATATTTAT
18304337 TTATTTATTATTA
1 TTATTTATTATTA
*
18304350 TTATTTATTAATA
1 TTATTTATTATTA
18304363 TATATTT-TTACTTA
1 T-TATTTATTA-TTA
18304377 TT
1 TT
18304379 TATCTATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 17 0.68
14 8 0.32
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTTATTATTA
Found at i:18304388 original size:28 final size:27
Alignment explanation
Indices: 18304338--18304424 Score: 101
Period size: 24 Copynumber: 3.3 Consensus size: 27
18304328 TATATTTATT
*
18304338 TATTTATTATTA-TTATTTATTAATATA
1 TATTT-TTATTATTTATCTATTAATATA
*
18304365 TATTTTTACTTATTTATCTATT-A-ACA
1 TATTTTTA-TTATTTATCTATTAATATA
18304391 TA-TTTTATTATTTATCTATTAATATA
1 TATTTTTATTATTTATCTATTAATATA
18304417 TATATTTT
1 TAT-TTTT
18304425 GATTTTATCT
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
24 13 0.25
25 6 0.12
26 11 0.22
27 9 0.18
28 12 0.24
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (27 bp):
TATTTTTATTATTTATCTATTAATATA
Found at i:18304398 original size:41 final size:37
Alignment explanation
Indices: 18304307--18304400 Score: 93
Period size: 37 Copynumber: 2.5 Consensus size: 37
18304297 TTGGGTAAGC
* *
18304307 TTATTTATATTTATATT-ATATTATATTTATTTATTTA
1 TTATTAATATTT-TATTAATATTATATTTACTTATTTA
* *
18304344 TTATTATTA-TTTATTAATATATATTTTTACTTATTTA
1 TTATTAATATTTTATTAATAT-TATATTTACTTATTTA
18304381 TCTATTAACATATTTTATTA
1 T-TATT-A-ATATTTTATTA
18304401 TTTATCTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
35 4 0.09
36 6 0.13
37 22 0.48
38 4 0.09
39 1 0.02
40 2 0.04
41 7 0.15
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (37 bp):
TTATTAATATTTTATTAATATTATATTTACTTATTTA
Found at i:18305352 original size:6 final size:6
Alignment explanation
Indices: 18305305--18305337 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
18305295 AATTATTTGG
18305305 TATTCTT TA-TTT TATTTT TATTTT TATTTT TAT
1 TATT-TT TATTTT TATTTT TATTTT TATTTT TAT
18305338 ACATTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 4 0.16
6 19 0.76
7 2 0.08
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:18305467 original size:60 final size:57
Alignment explanation
Indices: 18305372--18305545 Score: 206
Period size: 60 Copynumber: 2.9 Consensus size: 57
18305362 TAAAGTTTCA
* *
18305372 AAAAAAATATTTTTAAGGGAAAGTTGAAAGTATCAATTTTCTTGAAAATAAAAAAGGGTTT
1 AAAAAAATATTTTT-AGGAAAAGTTGAAAGGATCAATTTTCTTGAAAATAAAAAA--G-TT
* *
18305433 TAAAAAATATTTTTAGGAAAAATTGAAAGGATCAATTTTCCTTGAAAATAAAAAAGTT
1 AAAAAAATATTTTTAGGAAAAGTTGAAAGGATCAATTTT-CTTGAAAATAAAAAAGTT
* *
18305491 AAAAAATATATTTTTAGGGAAAAGTTGAAAGTG-TCAATTTTTCTTGGAAGTAAAA
1 AAAAAA-ATATTTTTA-GGAAAAGTTGAAAG-GATCAA-TTTTCTTGAAAATAAAA
18305546 TTTCTAAAAT
Statistics
Matches: 100, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
58 7 0.07
59 10 0.10
60 50 0.50
61 33 0.33
ACGTcount: A:0.47, C:0.04, G:0.16, T:0.33
Consensus pattern (57 bp):
AAAAAAATATTTTTAGGAAAAGTTGAAAGGATCAATTTTCTTGAAAATAAAAAAGTT
Found at i:18305709 original size:60 final size:55
Alignment explanation
Indices: 18305546--18305717 Score: 168
Period size: 55 Copynumber: 3.0 Consensus size: 55
18305536 GGAAGTAAAA
* * * * * * *
18305546 TTTC-TAAAATAAAATTTTCAAAAAGTATTTTGACGAAAAGTTAAAAGTATTAATT
1 TTTCTTAAAATAAAA-ATTAAAAAAATATTTTCAAGAAAAGTTGAAAGTATCAATT
* * * *
18305601 TTTCTTAAAATTAAAATTAAAAAAATATTTTGAAGAAAAGTAGGAAGTATCAATT
1 TTTCTTAAAATAAAAATTAAAAAAATATTTTCAAGAAAAGTTGAAAGTATCAATT
18305656 TTTCTTAAAAATAAAAATTATCAAGAAAA-ATATTTCAAGAAAAAGTTGAAAGTATCAATT
1 TTTCTT-AAAATAAAAATTA--AA-AAAATAT-TTTCAAG-AAAAGTTGAAAGTATCAATT
18305716 TT
1 TT
18305718 CTTTGTACAA
Statistics
Matches: 97, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
55 42 0.43
56 21 0.22
58 4 0.04
59 10 0.10
60 20 0.21
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.35
Consensus pattern (55 bp):
TTTCTTAAAATAAAAATTAAAAAAATATTTTCAAGAAAAGTTGAAAGTATCAATT
Found at i:18307061 original size:66 final size:66
Alignment explanation
Indices: 18306846--18307101 Score: 271
Period size: 66 Copynumber: 3.9 Consensus size: 66
18306836 AATTTAGAGA
* * * * * * * *
18306846 TAGATAGATTATTCAATTTTTCAGGTTAAGACAAGATGTACCGTACCTAGCAGTCTAAGAT-TGG
1 TAGATAGGTTATTCAATCTCTCAAGTTAGGGCAAGATGTACCGTACCTAACAGTCTAAGATAAGG
18306910 AG
66 -G
* * * * * *
18306912 TAGATAGGTTATTCAATTTTTTAAGTAAGGACAAGATGTATCGTACCTAACAGTCTAAGATAAGG
1 TAGATAGGTTATTCAATCTCTCAAGTTAGGGCAAGATGTACCGTACCTAACAGTCTAAGATAAGG
*
18306977 A
66 G
** * *
18306978 TAGATAGGTTATTCAATCTCTCAAGTTAGGGCAAGATGTACTATATCTAGCAGTCTAAGATAAGG
1 TAGATAGGTTATTCAATCTCTCAAGTTAGGGCAAGATGTACCGTACCTAACAGTCTAAGATAAGG
18307043 G
66 G
* * ** * *
18307044 TAGATAGGTTGTTCAATCTCTCAGGTTAAAGTAAGATGTACCGTATCTAACAGTCTAA
1 TAGATAGGTTATTCAATCTCTCAAGTTAGGGCAAGATGTACCGTACCTAACAGTCTAA
18307102 AATAGGTGGC
Statistics
Matches: 161, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
66 159 0.99
67 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (66 bp):
TAGATAGGTTATTCAATCTCTCAAGTTAGGGCAAGATGTACCGTACCTAACAGTCTAAGATAAGG
G
Found at i:18307081 original size:132 final size:132
Alignment explanation
Indices: 18306844--18307101 Score: 313
Period size: 132 Copynumber: 2.0 Consensus size: 132
18306834 AAAATTTAGA
* * * * *
18306844 GATAGATAGATTATTCAATTTTTCAGGTTAAGACAAGATGTACCGTACCTAGCAGTCTAAGATTG
1 GATAGATAGATTATTCAATCTCTCAAGTTAAGACAAGATGTACCATACCTAGCAGTCTAAGATAG
* * * * *
18306909 GAGTAGATAGGTTATTCAATTTTTTAAGTAAGGACAAGATGTATCGTACCTAACAGTCTAAGATA
66 GAGTAGATAGGTTATTCAATCTCTCAAGTAAAGACAAGATGTACCGTACCTAACAGTCTAAGATA
18306974 AG
131 AG
* * * * *
18306976 GATAGATAGGTTATTCAATCTCTCAAGTTAGGGCAAGATGTACTATATCTAGCAGTCTAAGATAA
1 GATAGATAGATTATTCAATCTCTCAAGTTAAGACAAGATGTACCATACCTAGCAGTCTAAGAT-A
* * * *
18307041 GG-GTAGATAGGTTGTTCAATCTCTCAGGTTAAAG-TAAGATGTACCGTATCTAACAGTCTAA
65 GGAGTAGATAGGTTATTCAATCTCTCAAG-TAAAGACAAGATGTACCGTACCTAACAGTCTAA
18307102 AATAGGTGGC
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
132 99 0.94
133 6 0.06
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (132 bp):
GATAGATAGATTATTCAATCTCTCAAGTTAAGACAAGATGTACCATACCTAGCAGTCTAAGATAG
GAGTAGATAGGTTATTCAATCTCTCAAGTAAAGACAAGATGTACCGTACCTAACAGTCTAAGATA
AG
Found at i:18310620 original size:18 final size:17
Alignment explanation
Indices: 18310593--18310648 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 17
18310583 ATTTTTTAAA
*
18310593 AAATATAAATATATAATT
1 AAATAAAAATATATAA-T
18310611 AAATAAAAATATAT-AT
1 AAATAAAAATATATAAT
18310627 AAATATAAAAT-TA-AAT
1 AAATA-AAAATATATAAT
18310643 AAATAA
1 AAATAA
18310649 TTAAAAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
15 1 0.03
16 15 0.43
17 6 0.17
18 13 0.37
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATAAAAATATATAAT
Found at i:18310653 original size:18 final size:19
Alignment explanation
Indices: 18310592--18310659 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 19
18310582 TATTTTTTAA
*
18310592 AAAATATAAATATATAATT
1 AAAATATAAATAAATAATT
*
18310611 -AAATAAAAATATATATAAATAT
1 AAAATATAAATA-A-AT-AAT-T
18310633 AAAAT-TAAATAAATAATT
1 AAAATATAAATAAATAATT
*
18310651 AAAAAATAA
1 AAAATATAA
18310660 TTATATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
18 15 0.38
19 6 0.15
20 4 0.10
21 4 0.10
22 6 0.15
23 4 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATATAAATAAATAATT
Found at i:18310659 original size:11 final size:12
Alignment explanation
Indices: 18310598--18310662 Score: 62
Period size: 12 Copynumber: 5.2 Consensus size: 12
18310588 TTAAAAAATA
*
18310598 TAAATATATAAT
1 TAAATAAATAAT
18310610 TAAATAAAAATATAT
1 TAAAT--AAATA-AT
18310625 ATAAATATAA-AAT
1 -TAAATA-AATAAT
18310638 TAAATAAATAAT
1 TAAATAAATAAT
18310650 TAAA-AAATAAT
1 TAAATAAATAAT
18310661 TA
1 TA
18310663 TATATATTGA
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
11 11 0.24
12 18 0.39
13 2 0.04
14 6 0.13
15 4 0.09
16 5 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TAAATAAATAAT
Found at i:18316593 original size:2 final size:2
Alignment explanation
Indices: 18316586--18316627 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
18316576 TGCTTCATGG
18316586 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
18316628 CCCCATGTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:18320941 original size:52 final size:52
Alignment explanation
Indices: 18320884--18321050 Score: 122
Period size: 52 Copynumber: 3.1 Consensus size: 52
18320874 CTGAAATTGG
18320884 AACTCTGGCTTGATTATGTAAAGGTTGAATGTCTCCTTCCTGACTGCCACTT
1 AACTCTGGCTTGATTATGTAAAGGTTGAATGTCTCCTTCCTGACTGCCACTT
* ** ** * ** * * ** * * * *
18320936 AACTCTGACACGGCT-TCTAAACGCGAGGCATGTGATGATATGCAGACTG-AAATT
1 AACTCTGGCTTGATTATGTAAA-G-GTTGAATGT-CTCCT-TCCTGACTGCCACTT
18320990 GGAACTCTGGCTTGATTATGTAAAGGTTGAATGTCTCCTTCCTGACTGCCACTT
1 --AACTCTGGCTTGATTATGTAAAGGTTGAATGTCTCCTTCCTGACTGCCACTT
18321044 AACTCTG
1 AACTCTG
18321051 ACACGGCTTC
Statistics
Matches: 75, Mismatches: 32, Indels: 16
0.61 0.26 0.13
Matches are distributed among these distances:
51 5 0.07
52 18 0.24
53 13 0.17
54 10 0.13
55 13 0.17
56 11 0.15
57 5 0.07
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (52 bp):
AACTCTGGCTTGATTATGTAAAGGTTGAATGTCTCCTTCCTGACTGCCACTT
Found at i:18321043 original size:108 final size:108
Alignment explanation
Indices: 18320854--18321070 Score: 434
Period size: 108 Copynumber: 2.0 Consensus size: 108
18320844 ATTTCTGGAT
18320854 GGCATGTGATGATATGCAGACTGAAATTGGAACTCTGGCTTGATTATGTAAAGGTTGAATGTCTC
1 GGCATGTGATGATATGCAGACTGAAATTGGAACTCTGGCTTGATTATGTAAAGGTTGAATGTCTC
18320919 CTTCCTGACTGCCACTTAACTCTGACACGGCTTCTAAACGCGA
66 CTTCCTGACTGCCACTTAACTCTGACACGGCTTCTAAACGCGA
18320962 GGCATGTGATGATATGCAGACTGAAATTGGAACTCTGGCTTGATTATGTAAAGGTTGAATGTCTC
1 GGCATGTGATGATATGCAGACTGAAATTGGAACTCTGGCTTGATTATGTAAAGGTTGAATGTCTC
18321027 CTTCCTGACTGCCACTTAACTCTGACACGGCTTCTAAACGCGA
66 CTTCCTGACTGCCACTTAACTCTGACACGGCTTCTAAACGCGA
18321070 G
1 G
18321071 CTTAGACATT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 109 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (108 bp):
GGCATGTGATGATATGCAGACTGAAATTGGAACTCTGGCTTGATTATGTAAAGGTTGAATGTCTC
CTTCCTGACTGCCACTTAACTCTGACACGGCTTCTAAACGCGA
Found at i:18321205 original size:2 final size:2
Alignment explanation
Indices: 18321170--18321195 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18321160 GGATACACTC
18321170 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
18321196 TAATTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18327414 original size:2 final size:2
Alignment explanation
Indices: 18327407--18327443 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
18327397 TTCGTCTCAA
18327407 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
18327444 ATGGAGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:18337482 original size:28 final size:28
Alignment explanation
Indices: 18337451--18337541 Score: 71
Period size: 28 Copynumber: 3.2 Consensus size: 28
18337441 TAAAAAAATA
18337451 TTTTTGAGAAAAAGTTGAAAGTATCAATT
1 TTTTTGAGAAAAAGTTGAAAGTATCAA-T
* * * *
18337480 TTTCTTGAAAATAAAATTTATAA--A-AAAT
1 TTT-TTGAGAA-AAAGTTGA-AAGTATCAAT
*
18337508 ATTTTTGAGGAAAAGTTGAAAGTATCAAT
1 -TTTTTGAGAAAAAGTTGAAAGTATCAAT
18337537 TTTTT
1 TTTTT
18337542 TTGAAAATAA
Statistics
Matches: 46, Mismatches: 9, Indels: 15
0.66 0.13 0.21
Matches are distributed among these distances:
26 2 0.04
27 6 0.13
28 12 0.26
29 11 0.24
30 7 0.15
31 6 0.13
32 2 0.04
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.41
Consensus pattern (28 bp):
TTTTTGAGAAAAAGTTGAAAGTATCAAT
Found at i:18337496 original size:58 final size:57
Alignment explanation
Indices: 18337428--18337716 Score: 393
Period size: 58 Copynumber: 4.9 Consensus size: 57
18337418 TGATCTTTTT
18337428 AAAATAAAAATTTTAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAAT-AAAATTTT-AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
* *
18337487 AAAATAAAATTTATAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTTG
1 AAAATAAAATTT-TAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
* ** *
18337545 AAAATAAGATTTCTAAAAAATATTTTTTG-GGGAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAATTT-TAAAAAATA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
* * *
18337603 AAAATAAGATTTCTAAAAAATATTTTTTGA-AGAAAAGTTGAAAATATCAAATTTTCTTG
1 AAAATAAAATTT-TAAAAAATA-TTTTTGAGA-AAAAGTTGAAAGTATCAATTTTTCTTG
18337662 AAAATAAAAATTTTTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTT
1 AAAAT-AAAA-TTTTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTT
18337717 TTTGTATAAA
Statistics
Matches: 208, Mismatches: 15, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
58 124 0.60
59 68 0.33
60 13 0.06
61 3 0.01
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (57 bp):
AAAATAAAATTTTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
Found at i:18337583 original size:116 final size:118
Alignment explanation
Indices: 18337428--18337716 Score: 433
Period size: 116 Copynumber: 2.5 Consensus size: 118
18337418 TGATCTTTTT
18337428 AAAATAAAAATTT-TAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
1 AAAATAAAAATTTCT-AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
* * * *
18337492 AAAATTTATAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTTG
65 AAAATTTATAAAAAATATTTTTTGAAGAAAAGTTGAAAATATCAAATTTTCTTG
* ** *
18337545 AAAAT-AAGATTTCTAAAAAATATTTTTTG-GGGAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAAATAAAAATTTCTAAAAAATA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
* *
18337608 AAGATTTCTAAAAAATATTTTTTGAAGAAAAGTTGAAAATATCAAATTTTCTTG
65 AAAATTTATAAAAAATATTTTTTGAAGAAAAGTTGAAAATATCAAATTTTCTTG
*
18337662 AAAATAAAAATTTTTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTT
1 AAAATAAAAATTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTT
18337717 TTTGTATAAA
Statistics
Matches: 152, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
116 60 0.39
117 55 0.36
118 37 0.24
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (118 bp):
AAAATAAAAATTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATA
AAATTTATAAAAAATATTTTTTGAAGAAAAGTTGAAAATATCAAATTTTCTTG
Found at i:18337676 original size:19 final size:19
Alignment explanation
Indices: 18337640--18337675 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18337630 TGAAGAAAAG
*
18337640 TTGAAAATATCAAATTTTC
1 TTGAAAATATAAAATTTTC
18337659 TTGAAAATA-AAAATTTT
1 TTGAAAATATAAAATTTT
18337676 TAAAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (19 bp):
TTGAAAATATAAAATTTTC
Found at i:18340933 original size:14 final size:12
Alignment explanation
Indices: 18340907--18340961 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 12
18340897 TGAAGGAAGG
18340907 AAAAAATAAAGA
1 AAAAAATAAAGA
18340919 AAAAAATAAAGA
1 AAAAAATAAAGA
* *
18340931 GAAAAAT--GGA
1 AAAAAATAAAGA
*
18340941 AAAAAAAAAAGA
1 AAAAAATAAAGA
18340953 AAAAGAATA
1 AAAA-AATA
18340962 CTCAAATTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
10 7 0.21
12 24 0.71
13 3 0.09
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (12 bp):
AAAAAATAAAGA
Found at i:18340953 original size:20 final size:22
Alignment explanation
Indices: 18340917--18340956 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18340907 AAAAAATAAA
18340917 GAAAAAAATAAAGAGAAAAATG
1 GAAAAAAATAAAGAGAAAAATG
18340939 GAAAAAAA-AAA-AGAAAAA
1 GAAAAAAATAAAGAGAAAAA
18340957 GAATACTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (22 bp):
GAAAAAAATAAAGAGAAAAATG
Found at i:18342083 original size:21 final size:21
Alignment explanation
Indices: 18342066--18342114 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
18342056 TTTATGAGAG
*
18342066 TCTTTGAATTTCAAATGAAAA
1 TCTTTGAACTTCAAATGAAAA
*
18342087 TCTTTGAACTTCAAA-AAAAA
1 TCTTTGAACTTCAAATGAAAA
18342107 GTCTTTGA
1 -TCTTTGA
18342115 GTTTTAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (21 bp):
TCTTTGAACTTCAAATGAAAA
Found at i:18342191 original size:20 final size:20
Alignment explanation
Indices: 18342166--18342203 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18342156 TGAGATTTAT
18342166 TGAATGAAAACCTTTGAACC
1 TGAATGAAAACCTTTGAACC
*
18342186 TGAATGAAAAGCTTTGAA
1 TGAATGAAAACCTTTGAA
18342204 TTTTTGGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.26
Consensus pattern (20 bp):
TGAATGAAAACCTTTGAACC
Found at i:18342561 original size:41 final size:41
Alignment explanation
Indices: 18342497--18342804 Score: 244
Period size: 41 Copynumber: 7.4 Consensus size: 41
18342487 GATTGTTGAG
* *
18342497 GAGCAATTTATTTTTTTTAAAGTTTTGGTGCCTCTGTTTAAAA
1 GAGCAATTTA--TTTTTTAAAGTTGTGGTGCCTCTGTTTAGAA
* *
18342540 GAGTAATTTATTTTTTAAAGTTGTGGTTG-CTTTGTTTA-AA
1 GAGCAATTTATTTTTTAAAGTTGTGG-TGCCTCTGTTTAGAA
* * * *
18342580 GGAGCAATTTATTTTTCAAAGTTGTGGTTGCCTTTATTTAGAT
1 -GAGCAATTTATTTTTTAAAGTTGTGG-TGCCTCTGTTTAGAA
* * *
18342623 GAGC-ATTTATTTTTTCAAAGTCGTGGTGCTTTTGTTTAGAA
1 GAGCAATTTATTTTTT-AAAGTTGTGGTGCCTCTGTTTAGAA
* * * *
18342664 GAGCAATTTATTTTTCAAAGTTGTAGTGCTTCTGTTTAAAA
1 GAGCAATTTATTTTTTAAAGTTGTGGTGCCTCTGTTTAGAA
** * ** * * * *
18342705 GAGTGATTTACTTTCCAAAGTTATAGTGCCTCTATTTAGAT
1 GAGCAATTTATTTTTTAAAGTTGTGGTGCCTCTGTTTAGAA
** * *** *
18342746 GAGCAATTTATTTTCAAAAGTTATTAAGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTTAAAGTTGTGGTGCCTCTGTTTAGAA
18342787 GAGCTTAATTTATTTTTT
1 GAGC--AATTTATTTTTT
18342805 CAAAAAAAAA
Statistics
Matches: 220, Mismatches: 37, Indels: 16
0.81 0.14 0.06
Matches are distributed among these distances:
40 2 0.01
41 165 0.75
42 33 0.15
43 20 0.09
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.46
Consensus pattern (41 bp):
GAGCAATTTATTTTTTAAAGTTGTGGTGCCTCTGTTTAGAA
Found at i:18342650 original size:124 final size:124
Alignment explanation
Indices: 18342497--18342759 Score: 332
Period size: 124 Copynumber: 2.1 Consensus size: 124
18342487 GATTGTTGAG
* ** * *
18342497 GAGCAATTTATTTTTTTTAAAGTTTTGGTGCCTCTGTTTAAAAGAGTAATTTATTTTTTAAAGTT
1 GAGCAATTTA-TTTTTTCAAAGTCGTGGTGCCTCTGTTTAAAAGAGCAATTTATTTTTCAAAGTT
* * * * * * *
18342562 GTGGTTGCTT-TGTTTAAAGGAGCAATTTATTTTTCAAAGTTGTGGTTGCCTTTATTTAGAT
65 GTAG-TGCTTCTGTTTAAAAGAGCAATTTACTTTCCAAAGTTATAG-TGCCTCTATTTAGAT
* * *
18342623 GAGC-ATTTATTTTTTCAAAGTCGTGGTGCTTTTGTTTAGAAGAGCAATTTATTTTTCAAAGTTG
1 GAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAAAAGAGCAATTTATTTTTCAAAGTTG
**
18342687 TAGTGCTTCTGTTTAAAAGAGTGATTTACTTTCCAAAGTTATAGTGCCTCTATTTAGAT
66 TAGTGCTTCTGTTTAAAAGAGCAATTTACTTTCCAAAGTTATAGTGCCTCTATTTAGAT
18342746 GAGCAATTTATTTT
1 GAGCAATTTATTTT
18342760 CAAAAGTTAT
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
123 23 0.19
124 86 0.73
125 5 0.04
126 4 0.03
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.47
Consensus pattern (124 bp):
GAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAAAAGAGCAATTTATTTTTCAAAGTTG
TAGTGCTTCTGTTTAAAAGAGCAATTTACTTTCCAAAGTTATAGTGCCTCTATTTAGAT
Found at i:18342657 original size:83 final size:83
Alignment explanation
Indices: 18342495--18342714 Score: 259
Period size: 83 Copynumber: 2.6 Consensus size: 83
18342485 ATGATTGTTG
* * *
18342495 AGGAGCAATTTATTTTTTTTAAAGTTTTGGTGCCTCTGTTTAAAAGAGTAATTTATTTTTTAAAG
1 AGGAGCAATTTA--TTTTTCAAAGTTGTGGTGCCTCTATTTAAAAGAGTAATTTATTTTTTAAAG
*
18342560 TTGTGGTTGCTTTGTTTA-A
64 TCGTGGTTGCTTTGTTTAGA
* * * *
18342579 AGGAGCAATTTATTTTTCAAAGTTGTGGTTGCCTTTATTTAGATGAG-CATTTATTTTTTCAAAG
1 AGGAGCAATTTATTTTTCAAAGTTGTGG-TGCCTCTATTTAAAAGAGTAATTTATTTTTT-AAAG
18342643 TCGTGG-TGCTTTTGTTTAGA
64 TCGTGGTTGC-TTTGTTTAGA
* * * *
18342663 A-GAGCAATTTATTTTTCAAAGTTGTAGTGCTTCTGTTTAAAAGAGTGATTTA
1 AGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAAAAGAGTAATTTA
18342715 CTTTCCAAAG
Statistics
Matches: 116, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
82 41 0.35
83 61 0.53
84 14 0.12
ACGTcount: A:0.25, C:0.08, G:0.20, T:0.47
Consensus pattern (83 bp):
AGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAAAAGAGTAATTTATTTTTTAAAGTC
GTGGTTGCTTTGTTTAGA
Found at i:18343915 original size:27 final size:26
Alignment explanation
Indices: 18343885--18343974 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 26
18343875 TTAAAAAAAT
18343885 ATTTTTGAGAAAAAGTTGAAAGTATC
1 ATTTTTGAGAAAAAGTTGAAAGTATC
* * **
18343911 AATTTTTCTTGAAAATAAAATTGCTAAAAAAT-
1 -A--TTT-TTGAGAA-AAAGTTG--AAAGTATC
18343943 ATTTTTGAGAAAAAGTTGAAAGTATC
1 ATTTTTGAGAAAAAGTTGAAAGTATC
18343969 GATTTT
1 -ATTTT
18343975 CCTTGAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
25 5 0.11
27 12 0.26
28 6 0.13
29 6 0.13
30 6 0.13
31 7 0.15
33 5 0.11
ACGTcount: A:0.43, C:0.04, G:0.14, T:0.38
Consensus pattern (26 bp):
ATTTTTGAGAAAAAGTTGAAAGTATC
Found at i:18343954 original size:58 final size:59
Alignment explanation
Indices: 18343863--18344006 Score: 229
Period size: 58 Copynumber: 2.5 Consensus size: 59
18343853 TGATCTCTTT
* *
18343863 AAAATAAAAATT-TTAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAAAATTGCT-AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
*
18343922 AAAAT-AAAATTGCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCGATTTTCCTTG
1 AAAATAAAAATTGCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
*
18343980 AAAATAAAAATTTCTAAAAAATATTTT
1 AAAATAAAAATTGCTAAAAAATATTTT
18344007 CAAAGGAAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
58 53 0.67
59 26 0.33
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (59 bp):
AAAATAAAAATTGCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:18344372 original size:44 final size:44
Alignment explanation
Indices: 18344324--18344410 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
18344314 AAAATATTTT
18344324 TGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTA
1 TGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTA
18344368 TGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATT
1 TGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATT
18344411 GTTAAAATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.34
Consensus pattern (44 bp):
TGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTA
Found at i:18344435 original size:60 final size:58
Alignment explanation
Indices: 18344371--18344663 Score: 367
Period size: 59 Copynumber: 4.9 Consensus size: 58
18344361 AAAATTATGA
* ** *
18344371 GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTGTTAAAATTTTTTTTTTGAG
1 GAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATT-TTAAAA-AATATTTTTGAG
* *
18344431 G-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTCTAAAAAATATTTTTGAA
1 GAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAAATTT-TAAAAAATATTTTTGAG
*
18344490 GAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGATTTCTAAAAAATATTTTTTGAG
1 GAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTT-TAAAAAATA-TTTTTGAG
* * * * *
18344550 GAAAAA-TTAAAAATATCAATTTTCCTTAAAAATAAAAATTTTTTAAAAATATTTTTGAG
1 GAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAAA-TTTTAAAAAATATTTTTGAG
18344609 G-AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTTAAAAAAATATTTT
1 GAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA-TTTT-AAAAAATATTTT
18344664 CAATTTTAAA
Statistics
Matches: 205, Mismatches: 20, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
58 13 0.06
59 122 0.60
60 67 0.33
61 3 0.01
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (58 bp):
GAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTAAAAAATATTTTTGAG
Done.